Research workbench
Structure of glyceraldehyde-3-phosphate dehydrogenase from candida albicans
Analyse Structure of glyceraldehyde-3-phosphate dehydrogenase from candida albicans in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7U4S
- Type
- protein
- Length
- 1,305 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glyceraldehyde-3-phosphate dehydrogenase
- EC
- 1.2.1.12
- UniProt
- Q92211
- Pockets
- 12 · best druggability 0.83
Structure
x-ray diffraction · 3 distinct chains · 30% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) | protein | 327 | 31% helix, 27% strand | Q92211 |
| B, D | Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) | protein | 325 | 30% helix, 25% strand | Q92211 |
| C | Glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.12) | protein | 328 | 29% helix, 28% strand | Q92211 |
Ligands and binding sites
- GOL · Glycerol · additive · 3 copies · chains D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1141 | 0.83 | 0.84 | 143 | empty |
| 2 | 223 | 0.49 | 0.75 | 48 | empty |
| 3 | 174 | 0.42 | 0.73 | 32 | empty |
| 4 | 146 | 0.40 | 0.74 | 27 | empty |
| 5 | 72 | 0.39 | 0.79 | 19 | empty |
Interfaces
6 interfaces between chains.
- A–C · 1937 Ų buried · 36 hydrogen bonds · protein-protein
- B–D · 1907 Ų buried · 25 hydrogen bonds · protein-protein
- B–C · 803 Ų buried · 7 hydrogen bonds · protein-protein
- A–D · 764 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 587 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (oxidation).
Compared structures
- 7U4S · Structure of Glyceraldehyde-3-Phosphate Dehydrogenase from Candida albicans · the same entry in another collection · chain D against D, TM-score 1.00
- Q92211 · AlphaFold monomer V2.0 prediction for glyceraldehyde-3-phosphate dehydrogenase (Q92211) · a predicted model of the same protein · chain C against A, TM-score 0.99
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q92211
- Elsewhere: RCSB PDB 7U4S · PDBe 7U4S · UniProt Q92211
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.